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Elevated anti-cyclic citrullinated peptide antibody titer is associated with increased risk for interstitial lung disease.

Correia CS, Briones MR, Guo R, Ostrowski RA.

Clin Rheumatol. 2019 Apr;38(4):1201-1206. doi: 10.1007/s10067-018-04421-0. Epub 2019 Jan 15.


Prolonged growth of Candida albicans reveals co-isolated bacteria from single yeast colonies.

Bruno DDCF, Bartelli TF, Rodrigues CR, Briones MRS.

Infect Genet Evol. 2018 Nov;65:117-126. doi: 10.1016/j.meegid.2018.07.021. Epub 2018 Jul 19.


Genome Sequence of a Staphylococcus epidermidis Strain (GTH12) Associated with Candida albicans SC5314 Cultured under Hypoxia at 37°C in Glycerol for 12 Weeks.

Bruno DDCF, Bartelli TF, Briones MRS.

Genome Announc. 2018 Jun 21;6(25). pii: e00533-18. doi: 10.1128/genomeA.00533-18.


Evidence for Mitochondrial Genome Methylation in the Yeast Candida albicans: A Potential Novel Epigenetic Mechanism Affecting Adaptation and Pathogenicity?

Bartelli TF, Bruno DCF, Briones MRS.

Front Genet. 2018 May 29;9:166. doi: 10.3389/fgene.2018.00166. eCollection 2018.


A Possible Role for Platelet-Activating Factor Receptor in Amyotrophic Lateral Sclerosis Treatment.

Briones MRS, Snyder AM, Ferreira RC, Neely EB, Connor JR, Broach JR.

Front Neurol. 2018 Feb 6;9:39. doi: 10.3389/fneur.2018.00039. eCollection 2018.


Whole-Genome Sequences and Annotation of the Opportunistic Pathogen Candida albicans Strain SC5314 Grown under Two Different Environmental Conditions.

Bartelli TF, Bruno DDCF, Briones MRS.

Genome Announc. 2018 Feb 1;6(5). pii: e01475-17. doi: 10.1128/genomeA.01475-17.


A Kolmogorov-Smirnov test for the molecular clock based on Bayesian ensembles of phylogenies.

Antoneli F, Passos FM, Lopes LR, Briones MRS.

PLoS One. 2018 Jan 4;13(1):e0190826. doi: 10.1371/journal.pone.0190826. eCollection 2018. Erratum in: PLoS One. 2018 Feb 23;13(2):e0193633.


Decreased CD3-CD16+CD56+ natural killer cell counts in children with orbital myositis: a clue to disease activity.

Briones MR, Morgan GA, Amoruso MC, Rahmani B, Ryan ME, Pachman LM.

RMD Open. 2017 Jul 11;3(1):e000385. doi: 10.1136/rmdopen-2016-000385. eCollection 2017.


Histone Deacetylase 1 Is Essential for Rod Photoreceptor Differentiation by Regulating Acetylation at Histone H3 Lysine 9 and Histone H4 Lysine 12 in the Mouse Retina.

Ferreira RC, Popova EY, James J, Briones MR, Zhang SS, Barnstable CJ.

J Biol Chem. 2017 Feb 10;292(6):2422-2440. doi: 10.1074/jbc.M116.756643. Epub 2016 Dec 27.


A model of gene expression based on random dynamical systems reveals modularity properties of gene regulatory networks.

Antoneli F, Ferreira RC, Briones MR.

Math Biosci. 2016 Jun;276:82-100. doi: 10.1016/j.mbs.2016.03.008. Epub 2016 Mar 30.


Genetic diversity of medically important and emerging Candida species causing invasive infection.

Merseguel KB, Nishikaku AS, Rodrigues AM, Padovan AC, e Ferreira RC, de Azevedo Melo AS, Briones MR, Colombo AL.

BMC Infect Dis. 2015 Feb 13;15:57. doi: 10.1186/s12879-015-0793-3.


Extracellular enolase of Candida albicans is involved in colonization of mammalian intestinal epithelium.

Silva RC, Padovan AC, Pimenta DC, Ferreira RC, da Silva CV, Briones MR.

Front Cell Infect Microbiol. 2014 Jun 3;4:66. doi: 10.3389/fcimb.2014.00066. eCollection 2014.


Trypanosoma cruzi: Genome characterization of phosphatidylinositol kinase gene family (PIK and PIK-related) and identification of a novel PIK gene.

Oliveira P, Lima FM, Cruz MC, Ferreira RC, Sanchez-Flores A, Cordero EM, Cortez DR, Ferreira ÉR, Briones MR, Mortara RA, da Silveira JF, Bahia D.

Infect Genet Evol. 2014 Jul;25:157-65. doi: 10.1016/j.meegid.2014.03.022. Epub 2014 Apr 13.


A quick and low-cost PCR-based assay for Candida spp. identification in positive blood culture bottles.

Xafranski H, Melo AS, Machado AM, Briones MR, Colombo AL.

BMC Infect Dis. 2013 Oct 7;13:467. doi: 10.1186/1471-2334-13-467.


The hidden factors in impact factors: a perspective from Brazilian science.

Ferreira RC, Antoneli F, Briones MR.

Front Genet. 2013 Jul 11;4:130. doi: 10.3389/fgene.2013.00130. eCollection 2013. No abstract available.


The genome sequence of Leishmania (Leishmania) amazonensis: functional annotation and extended analysis of gene models.

Real F, Vidal RO, Carazzolle MF, Mondego JM, Costa GG, Herai RH, Würtele M, de Carvalho LM, Carmona e Ferreira R, Mortara RA, Barbiéri CL, Mieczkowski P, da Silveira JF, Briones MR, Pereira GA, Bahia D.

DNA Res. 2013 Dec;20(6):567-81. doi: 10.1093/dnares/dst031. Epub 2013 Jul 15.


Intraspecific comparative genomics of Candida albicans mitochondria reveals non-coding regions under neutral evolution.

Bartelli TF, Ferreira RC, Colombo AL, Briones MR.

Infect Genet Evol. 2013 Mar;14:302-12. doi: 10.1016/j.meegid.2012.12.012. Epub 2012 Dec 29.


Differential infectivity by the oral route of Trypanosoma cruzi lineages derived from Y strain.

Cortez C, Martins RM, Alves RM, Silva RC, Bilches LC, Macedo S, Atayde VD, Kawashita SY, Briones MR, Yoshida N.

PLoS Negl Trop Dis. 2012;6(10):e1804. doi: 10.1371/journal.pntd.0001804. Epub 2012 Oct 4.


Accurate identification of Candida parapsilosis (sensu lato) by use of mitochondrial DNA and real-time PCR.

Souza AC, Ferreira RC, Gonçalves SS, Quindós G, Eraso E, Bizerra FC, Briones MR, Colombo AL.

J Clin Microbiol. 2012 Jul;50(7):2310-4. doi: 10.1128/JCM.00303-12. Epub 2012 Apr 25.


Network genealogy of 195-bp satellite DNA supports the superimposed hybridization hypothesis of Trypanosoma cruzi evolutionary pattern.

Ienne S, Pedroso A, Carmona E Ferreira R, Briones MR, Zingales B.

Infect Genet Evol. 2010 Jul;10(5):601-6. doi: 10.1016/j.meegid.2010.04.007. Epub 2010 Apr 28.


A new consensus for Trypanosoma cruzi intraspecific nomenclature: second revision meeting recommends TcI to TcVI.

Zingales B, Andrade SG, Briones MR, Campbell DA, Chiari E, Fernandes O, Guhl F, Lages-Silva E, Macedo AM, Machado CR, Miles MA, Romanha AJ, Sturm NR, Tibayrenc M, Schijman AG; Second Satellite Meeting.

Mem Inst Oswaldo Cruz. 2009 Nov;104(7):1051-4.


Prevalence rates and antifungal susceptibility profiles of the Candida parapsilosis species complex: results from a nationwide surveillance of candidaemia in Brazil.

Gonçalves SS, Amorim CS, Nucci M, Padovan AC, Briones MR, Melo AS, Colombo AL.

Clin Microbiol Infect. 2010 Jul;16(7):885-7. doi: 10.1111/j.1469-0691.2009.03020.x. Epub 2009 Aug 17.


Homology, paralogy and function of DGF-1, a highly dispersed Trypanosoma cruzi specific gene family and its implications for information entropy of its encoded proteins.

Kawashita SY, da Silva CV, Mortara RA, Burleigh BA, Briones MR.

Mol Biochem Parasitol. 2009 May;165(1):19-31. doi: 10.1016/j.molbiopara.2008.12.010. Epub 2009 Jan 15.


Characterization of a 21kDa protein from Trypanosoma cruzi associated with mammalian cell invasion.

da Silva CV, Kawashita SY, Probst CM, Dallagiovanna B, Cruz MC, da Silva EA, Souto-Padrón TC, Krieger MA, Goldenberg S, Briones MR, Andrews NW, Mortara RA.

Microbes Infect. 2009 Apr;11(5):563-70. doi: 10.1016/j.micinf.2009.03.007. Epub 2009 Apr 1.


Scaling properties of transcription profiles in gene networks.

Ferreira RC, Bosco F, Briones MR.

Int J Bioinform Res Appl. 2009;5(2):178-86.


Association of loss of heterozygosity with cytogenetic abnormalities in acute myeloid leukemia and myelodysplastic syndrome.

Pinheiro RF, Serio FM, Silva MR, Briones MR, Chauffaille ML.

Braz J Med Biol Res. 2008 Jul;41(7):610-4.


Identification of midgut microvillar proteins from Tenebrio molitor and Spodoptera frugiperda by cDNA library screenings with antibodies.

Ferreira AH, Cristofoletti PT, Lorenzini DM, Guerra LO, Paiva PB, Briones MR, Terra WR, Ferreira C.

J Insect Physiol. 2007 Nov;53(11):1112-24. Epub 2007 Jun 17.


Minimization of transcriptional temporal noise and scale invariance in the yeast genome.

Ferreira RC, Bosco F, Paiva PB, Briones MR.

Genet Mol Res. 2007 Jul 1;6(2):397-414.


The Candida albicans AAA ATPase homologue of Saccharomyces cerevisiae Rix7p (YLL034c) is essential for proper morphology, biofilm formation and activity of secreted aspartyl proteinases.

Melo AS, Padovan AC, Serafim RC, Puzer L, Carmona AK, Juliano Neto L, Brunstein A, Briones MR.

Genet Mol Res. 2006 Nov 30;5(4):664-87.


Hippocampal gene expression analysis using the ORESTES methodology shows that homer 1a mRNA is upregulated in the acute period of the pilocarpine epilepsy model.

Avedissian M, Longo BM, Jaqueta CB, Schnabel B, Paiva PB, Mello LE, Briones MR.

Hippocampus. 2007;17(2):130-6.


Deletion of 17p13 and LIS1 gene mutation in isolated lissencephaly sequence.

Elias RC, Galera MF, Schnabel B, Briones MR, Borri ML, Lipay M, Carvalheira G, Brunoni D, Melaragno MI.

Pediatr Neurol. 2006 Jul;35(1):42-6.


A transcript finishing initiative for closing gaps in the human transcriptome.

Sogayar MC, Camargo AA, Bettoni F, Carraro DM, Pires LC, Parmigiani RB, Ferreira EN, de Sá Moreira E, do Rosário D de O Latorre M, Simpson AJ, Cruz LO, Degaki TL, Festa F, Massirer KB, Sogayar MC, Filho FC, Camargo LP, Cunha MA, De Souza SJ, Faria M Jr, Giuliatti S, Kopp L, de Oliveira PS, Paiva PB, Pereira AA, Pinheiro DG, Puga RD, S de Souza JE, Albuquerque DM, Andrade LE, Baia GS, Briones MR, Cavaleiro-Luna AM, Cerutti JM, Costa FF, Costanzi-Strauss E, Espreafico EM, Ferrasi AC, Ferro ES, Fortes MA, Furchi JR, Giannella-Neto D, Goldman GH, Goldman MH, Gruber A, Guimarães GS, Hackel C, Henrique-Silva F, Kimura ET, Leoni SG, Macedo C, Malnic B, Manzini B CV, Marie SK, Martinez-Rossi NM, Menossi M, Miracca EC, Nagai MA, Nobrega FG, Nobrega MP, Oba-Shinjo SM, Oliveira MK, Orabona GM, Otsuka AY, Paço-Larson ML, Paixão BM, Pandolfi JR, Pardini MI, Passos Bueno MR, Passos GA, Pesquero JB, Pessoa JG, Rahal P, Rainho CA, Reis CP, Ricca TI, Rodrigues V, Rogatto SR, Romano CM, Romeiro JG, Rossi A, Sá RG, Sales MM, Sant'Anna SC, Santarosa PL, Segato F, Silva WA Jr, Silva ID, Silva NP, Soares-Costa A, Sonati MF, Strauss BE, Tajara EH, Valentini SR, Villanova FE, Ward LS, Zanette DL; Ludwig-FAPESP Transcript Finishing Initiative.

Genome Res. 2004 Jul;14(7):1413-23. Epub 2004 Jun 14.


The generation and utilization of a cancer-oriented representation of the human transcriptome by using expressed sequence tags.

Brentani H, Caballero OL, Camargo AA, da Silva AM, da Silva WA Jr, Dias Neto E, Grivet M, Gruber A, Guimaraes PE, Hide W, Iseli C, Jongeneel CV, Kelso J, Nagai MA, Ojopi EP, Osorio EC, Reis EM, Riggins GJ, Simpson AJ, de Souza S, Stevenson BJ, Strausberg RL, Tajara EH, Verjovski-Almeida S, Acencio ML, Bengtson MH, Bettoni F, Bodmer WF, Briones MR, Camargo LP, Cavenee W, Cerutti JM, Coelho Andrade LE, Costa dos Santos PC, Ramos Costa MC, da Silva IT, Estécio MR, Sa Ferreira K, Furnari FB, Faria M Jr, Galante PA, Guimaraes GS, Holanda AJ, Kimura ET, Leerkes MR, Lu X, Maciel RM, Martins EA, Massirer KB, Melo AS, Mestriner CA, Miracca EC, Miranda LL, Nobrega FG, Oliveira PS, Paquola AC, Pandolfi JR, Campos Pardini MI, Passetti F, Quackenbush J, Schnabel B, Sogayar MC, Souza JE, Valentini SR, Zaiats AC, Amaral EJ, Arnaldi LA, de Araújo AG, de Bessa SA, Bicknell DC, Ribeiro de Camaro ME, Carraro DM, Carrer H, Carvalho AF, Colin C, Costa F, Curcio C, Guerreiro da Silva ID, Pereira da Silva N, Dellamano M, El-Dorry H, Espreafico EM, Scattone Ferreira AJ, Ayres Ferreira C, Fortes MA, Gama AH, Giannella-Neto D, Giannella ML, Giorgi RR, Goldman GH, Goldman MH, Hackel C, Ho PL, Kimura EM, Kowalski LP, Krieger JE, Leite LC, Lopes A, Luna AM, Mackay A, Mari SK, Marques AA, Martins WK, Montagnini A, Mourão Neto M, Nascimento AL, Neville AM, Nobrega MP, O'Hare MJ, Otsuka AY, Ruas de Melo AI, Paco-Larson ML, Guimarães Pereira G, Pereira da Silva N, Pesquero JB, Pessoa JG, Rahal P, Rainho CA, Rodrigues V, Rogatto SR, Romano CM, Romeiro JG, Rossi BM, Rusticci M, Guerra de Sá R, Sant' Anna SC, Sarmazo ML, Silva TC, Soares FA, Sonati Mde F, de Freitas Sousa J, Queiroz D, Valente V, Vettore AL, Villanova FE, Zago MA, Zalcberg H; Human Cancer Genome Project/Cancer Genome Anatomy Project Annotation Consortium; Human Cancer Genome Project Sequencing Consortium.

Proc Natl Acad Sci U S A. 2003 Nov 11;100(23):13418-23. Epub 2003 Oct 30.


Quantitation of liver-stage parasites by competitive RT-PCR.

McKenna KC, Briones MR.

Methods Mol Med. 2002;72:141-8. No abstract available.


Experimental phylogeny of neutrally evolving DNA sequences generated by a bifurcate series of nested polymerase chain reactions.

Sanson GF, Kawashita SY, Brunstein A, Briones MR.

Mol Biol Evol. 2002 Feb;19(2):170-8.


Maximum-likelihood divergence date estimates based on rRNA gene sequences suggest two scenarios of Trypanosoma cruzi intraspecific evolution.

Kawashita SY, Sanson GF, Fernandes O, Zingales B, Briones MR.

Mol Biol Evol. 2001 Dec;18(12):2250-9.


The contribution of 700,000 ORF sequence tags to the definition of the human transcriptome.

Camargo AA, Samaia HP, Dias-Neto E, Simão DF, Migotto IA, Briones MR, Costa FF, Nagai MA, Verjovski-Almeida S, Zago MA, Andrade LE, Carrer H, El-Dorry HF, Espreafico EM, Habr-Gama A, Giannella-Neto D, Goldman GH, Gruber A, Hackel C, Kimura ET, Maciel RM, Marie SK, Martins EA, Nobrega MP, Paco-Larson ML, Pardini MI, Pereira GG, Pesquero JB, Rodrigues V, Rogatto SR, da Silva ID, Sogayar MC, Sonati MF, Tajara EH, Valentini SR, Alberto FL, Amaral ME, Aneas I, Arnaldi LA, de Assis AM, Bengtson MH, Bergamo NA, Bombonato V, de Camargo ME, Canevari RA, Carraro DM, Cerutti JM, Correa ML, Correa RF, Costa MC, Curcio C, Hokama PO, Ferreira AJ, Furuzawa GK, Gushiken T, Ho PL, Kimura E, Krieger JE, Leite LC, Majumder P, Marins M, Marques ER, Melo AS, Melo MB, Mestriner CA, Miracca EC, Miranda DC, Nascimento AL, Nobrega FG, Ojopi EP, Pandolfi JR, Pessoa LG, Prevedel AC, Rahal P, Rainho CA, Reis EM, Ribeiro ML, da Ros N, de Sa RG, Sales MM, Sant'anna SC, dos Santos ML, da Silva AM, da Silva NP, Silva WA Jr, da Silveira RA, Sousa JF, Stecconi D, Tsukumo F, Valente V, Soares F, Moreira ES, Nunes DN, Correa RG, Zalcberg H, Carvalho AF, Reis LF, Brentani RR, Simpson AJ, de Souza SJ.

Proc Natl Acad Sci U S A. 2001 Oct 9;98(21):12103-8. Erratum in: Proc Natl Acad Sci U S A. 2004 Jan 6;101(1):414. Melo, M [corrected to Melo, MB].


Identification of human chromosome 22 transcribed sequences with ORF expressed sequence tags.

de Souza SJ, Camargo AA, Briones MR, Costa FF, Nagai MA, Verjovski-Almeida S, Zago MA, Andrade LE, Carrer H, El-Dorry HF, Espreafico EM, Habr-Gama A, Giannella-Neto D, Goldman GH, Gruber A, Hackel C, Kimura ET, Maciel RM, Marie SK, Martins EA, Nobrega MP, Paco-Larson ML, Pardini MI, Pereira GG, Pesquero JB, Rodrigues V, Rogatto SR, da Silva ID, Sogayar MC, de Fátima Sonati M, Tajara EH, Valentini SR, Acencio M, Alberto FL, Amaral ME, Aneas I, Bengtson MH, Carraro DM, Carvalho AF, Carvalho LH, Cerutti JM, Corrêa ML, Costa MC, Curcio C, Gushiken T, Ho PL, Kimura E, Leite LC, Maia G, Majumder P, Marins M, Matsukuma A, Melo AS, Mestriner CA, Miracca EC, Miranda DC, Nascimento AN, Nóbrega FG, Ojopi EP, Pandolfi JR, Pessoa LG, Rahal P, Rainho CA, da Rós N, de Sá RG, Sales MM, da Silva NP, Silva TC, da Silva W Jr, Simão DF, Sousa JF, Stecconi D, Tsukumo F, Valente V, Zalcbeg H, Brentani RR, Reis FL, Dias-Neto E, Simpson AJ.

Proc Natl Acad Sci U S A. 2000 Nov 7;97(23):12690-3.


The genome sequence of the plant pathogen Xylella fastidiosa. The Xylella fastidiosa Consortium of the Organization for Nucleotide Sequencing and Analysis.

Simpson AJ, Reinach FC, Arruda P, Abreu FA, Acencio M, Alvarenga R, Alves LM, Araya JE, Baia GS, Baptista CS, Barros MH, Bonaccorsi ED, Bordin S, Bové JM, Briones MR, Bueno MR, Camargo AA, Camargo LE, Carraro DM, Carrer H, Colauto NB, Colombo C, Costa FF, Costa MC, Costa-Neto CM, Coutinho LL, Cristofani M, Dias-Neto E, Docena C, El-Dorry H, Facincani AP, Ferreira AJ, Ferreira VC, Ferro JA, Fraga JS, França SC, Franco MC, Frohme M, Furlan LR, Garnier M, Goldman GH, Goldman MH, Gomes SL, Gruber A, Ho PL, Hoheisel JD, Junqueira ML, Kemper EL, Kitajima JP, Krieger JE, Kuramae EE, Laigret F, Lambais MR, Leite LC, Lemos EG, Lemos MV, Lopes SA, Lopes CR, Machado JA, Machado MA, Madeira AM, Madeira HM, Marino CL, Marques MV, Martins EA, Martins EM, Matsukuma AY, Menck CF, Miracca EC, Miyaki CY, Monteriro-Vitorello CB, Moon DH, Nagai MA, Nascimento AL, Netto LE, Nhani A Jr, Nobrega FG, Nunes LR, Oliveira MA, de Oliveira MC, de Oliveira RC, Palmieri DA, Paris A, Peixoto BR, Pereira GA, Pereira HA Jr, Pesquero JB, Quaggio RB, Roberto PG, Rodrigues V, de M Rosa AJ, de Rosa VE Jr, de Sá RG, Santelli RV, Sawasaki HE, da Silva AC, da Silva AM, da Silva FR, da Silva WA Jr, da Silveira JF, Silvestri ML, Siqueira WJ, de Souza AA, de Souza AP, Terenzi MF, Truffi D, Tsai SM, Tsuhako MH, Vallada H, Van Sluys MA, Verjovski-Almeida S, Vettore AL, Zago MA, Zatz M, Meidanis J, Setubal JC.

Nature. 2000 Jul 13;406(6792):151-9.


Epidemiology, biochemistry and evolution of Trypanosoma cruzi lineages based on ribosomal RNA sequences.

Zingales B, Stolf BS, Souto RP, Fernandes O, Briones MR.

Mem Inst Oswaldo Cruz. 1999;94 Suppl 1:159-64. doi: 10.1590/S0074-02761999000700020. Review. No abstract available.

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